Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis.
Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis.
复制标题
DOI：
10.1016/j.cub.2018.09.026
复制
发表时间：
2018-11-19
期刊：
影响因子：
--
通讯作者：
Furlong EEM
中科院分区：
文献类型：
--
作者：
Schor IE;Bussotti G;Maleš M;Forneris M;Viales RR;Enright AJ;Furlong EEM
长链非编码RNA（lncRNA）通常可以在发育过程中调控基因表达;然而，它们作为发育过程和生物表型中的重要调控因子的普遍性仍不清楚。在这里，我们进行了一个量身定制的调查lncRNA的表达和功能在果蝇胚胎发育，询问多个阶段，组织特异性，核定位和遗传背景。我们的结果几乎使这些胚胎阶段表达的注释lncRNA的数量增加了一倍。lncRNA水平通常与其邻近基因的水平正相关，几乎没有转录干扰的证据。使用荧光原位杂交，我们报告了15个新的lncRNA的时空表达，揭示了非常动态的组织特异性模式。尽管如此，选定的lncRNA基因的缺失在标准和应激条件下没有明显的发育缺陷或对活力的影响。然而，两个lncRNA缺失导致少量基因的适度表达变化，表明它们微调了非必需基因的表达。几种lncRNA具有菌株特异性表达，表明它们在群体中不固定。这种跨遗传背景的种内变异可能因此成为区分快速进化的lncRNA与尚未发挥的非必需作用的有用工具。差异lncRNA表达与高表达基因正相关尽管表达复杂，但3种lncRNA的缺失没有明显缺陷天然序列变异导致非编码基因间转录，即，lncRNA这可用于鉴定最近进化的、尚未具有功能的lncRNA。鉴定了数百种在特定胚胎阶段和中胚层中表达的新lncRNA。很多都有非常特殊的时空表达。缺失3个lncRNA是可行的，没有明显的表型，即使在应激时。许多lncRNA具有菌株特异性表达，突出了序列变异如何导致基因间转录。
Long non-coding RNAs (lncRNAs) can often function in the regulation of gene expression during development; however, their generality as essential regulators in developmental processes and organismal phenotypes remains unclear. Here, we performed a tailored investigation of lncRNA expression and function during Drosophila embryogenesis, interrogating multiple stages, tissue specificity, nuclear localization, and genetic backgrounds. Our results almost double the number of annotated lncRNAs expressed at these embryonic stages. lncRNA levels are generally positively correlated with those of their neighboring genes, with little evidence of transcriptional interference. Using fluorescent in situ hybridization, we report the spatiotemporal expression of 15 new lncRNAs, revealing very dynamic tissue-specific patterns. Despite this, deletion of selected lncRNA genes had no obvious developmental defects or effects on viability under standard and stressed conditions. However, two lncRNA deletions resulted in modest expression changes of a small number of genes, suggesting that they fine-tune expression of non-essential genes. Several lncRNAs have strain-specific expression, indicating that they are not fixed within the population. This intra-species variation across genetic backgrounds may thereby be a useful tool to distinguish rapidly evolving lncRNAs with as yet non-essential roles. Divergent lncRNA expression is positively correlated with highly expressed genes Despite complex expression, deletion of 3 lncRNAs had no obvious defects Natural sequence variation leads to non-coding intergenic transcription, i.e., lncRNA This could be used to identify recently evolved, as yet non-functional, lncRNAs Schor et al. identify hundreds of new lncRNAs expressed at specific embryonic stages and in mesoderm. Many have very specific spatiotemporal expression. Deletion of 3 lncRNAs are viable with no obvious phenotypes, even when stressed. Many lncRNAs have strain-specific expression, highlighting how sequence variation leads to intergenic transcription.
登录
查看更多内容
影响因子：
8.8
作者：
Core LJ;Waterfall JJ;Gilchrist DA;Fargo DC;Kwak H;Adelman K;Lis JT
通讯作者：
Lis JT
果蝇变态过程中长非编码RNA的全基因组鉴定和发育表达谱分析
影响因子：
4.6
作者：
Chen B;Zhang Y;Zhang X;Jia S;Chen S;Kang L
通讯作者：
Kang L
影响因子：
14.9
作者：
Gallo SM;Gerrard DT;Miner D;Simich M;Des Soye B;Bergman CM;Halfon MS
通讯作者：
Halfon MS
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
7.7
作者：
Davis MP;Carrieri C;Saini HK;van Dongen S;Leonardi T;Bussotti G;Monahan JM;Auchynnikava T;Bitetti A;Rappsilber J;Allshire RC;Shkumatava A;O'Carroll D;Enright AJ
通讯作者：
Enright AJ